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0  structures 113  species 0  interactions 126  sequences 2  architectures

Family: Acetone_carb_G (PF08882)

Summary: Acetone carboxylase gamma subunit

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Acetone carboxylase gamma subunit Provide feedback

Acetone carboxylase is the key enzyme of bacterial acetone metabolism, catalysing the condensation of acetone and CO(2) to form acetoacetate.

Literature references

  1. Sluis MK, Larsen RA, Krum JG, Anderson R, Metcalf WW, Ensign SA; , J Bacteriol. 2002;184:2969-2977.: Biochemical, molecular, and genetic analyses of the acetone carboxylases from Xanthobacter autotrophicus strain Py2 and Rhodobacter capsulatus strain B10. PUBMED:12003937 EPMC:12003937


Internal database links

External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR014979

Acetone carboxylase is the key enzyme of bacterial acetone metabolism, catalysing the condensation of acetone and CO2 to form acetoacetate [PUBMED:12003937] according to the following reaction: CH3COCH3 + CO2 + ATP = CH3COCH2COO- + AMP + 2P(i) + H+

It has the subunit composition: (alpha(2)beta(2)gamma(2) multimers of 85kDa, 78kDa, and 20kDa subunits). It is expressed to high levels (17 to 25% of soluble protein) in cells grown with acetone as the carbon source but are not present at detectable levels in cells grown with other carbon sources [PUBMED:12003937]. Acetone carboxylase may enable Helicobacter pylori to survive off acetone in the stomach of humans and other mammals where it is the etiological agent of peptic ulcer disease [PUBMED:18215283].

This entry represents the family of gamma subunit-related acetone carboxylase proteins.

Domain organisation

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Alignments

We store a range of different sequence alignments for families. As well as the seed alignment from which the family is built, we provide the full alignment, generated by searching the sequence database using the family HMM. We also generate alignments using four representative proteomes (RP) sets, the NCBI sequence database, and our metagenomics sequence database. More...

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We make a range of alignments for each Pfam-A family. You can see a description of each above. You can view these alignments in various ways but please note that some types of alignment are never generated while others may not be available for all families, most commonly because the alignments are too large to handle.

  Seed
(24)
Full
(126)
Representative proteomes NCBI
(118)
Meta
(9)
RP15
(17)
RP35
(31)
RP55
(44)
RP75
(52)
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Key: ✓ available, x not generated, not available.

Format an alignment

  Seed
(24)
Full
(126)
Representative proteomes NCBI
(118)
Meta
(9)
RP15
(17)
RP35
(31)
RP55
(44)
RP75
(52)
Alignment:
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Sequence:
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We make all of our alignments available in Stockholm format. You can download them here as raw, plain text files or as gzip-compressed files.

  Seed
(24)
Full
(126)
Representative proteomes NCBI
(118)
Meta
(9)
RP15
(17)
RP35
(31)
RP55
(44)
RP75
(52)
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You can also download a FASTA format file containing the full-length sequences for all sequences in the full alignment.

External links

MyHits provides a collection of tools to handle multiple sequence alignments. For example, one can refine a seed alignment (sequence addition or removal, re-alignment or manual edition) and then search databases for remote homologs using HMMER3.

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HMM logos is one way of visualising profile HMMs. Logos provide a quick overview of the properties of an HMM in a graphical form. You can see a more detailed description of HMM logos and find out how you can interpret them here. More...

Trees

This page displays the phylogenetic tree for this family's seed alignment. We use FastTree to calculate neighbour join trees with a local bootstrap based on 100 resamples (shown next to the tree nodes). FastTree calculates approximately-maximum-likelihood phylogenetic trees from our seed alignment.

Note: You can also download the data file for the tree.

Curation and family details

This section shows the detailed information about the Pfam family. You can see the definitions of many of the terms in this section in the glossary and a fuller explanation of the scoring system that we use in the scores section of the help pages.

Curation View help on the curation process

Seed source: PSI2 target BIG_95
Previous IDs: none
Type: Domain
Author: Bateman A
Number in seed: 24
Number in full: 126
Average length of the domain: 111.40 aa
Average identity of full alignment: 52 %
Average coverage of the sequence by the domain: 68.55 %

HMM information View help on HMM parameters

HMM build commands:
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 23193494 -E 1000 --cpu 4 HMM pfamseq
Model details:
Parameter Sequence Domain
Gathering cut-off 20.8 20.8
Trusted cut-off 21.3 37.7
Noise cut-off 20.2 20.1
Model length: 112
Family (HMM) version: 6
Download: download the raw HMM for this family

Species distribution

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